RetrogeneDB ID: | retro_mmus_910 | ||
Retrocopy location | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 12:119352517..119353052(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Praf2 | ||
| Ensembl ID: | ENSMUSG00000031149 | ||
| Aliases: | Praf2, AA986329, C78013, DXImx39e, JM4, Sfc20 | ||
| Description: | PRA1 domain family 2 [Source:MGI Symbol;Acc:MGI:1859607] |
Retrocopy-Parental alignment summary:
>retro_mmus_910
ATGTTGGAGGTGAGGCTGCCACTGCTGAGCACCCTAGATGACTTTGTCCTGGGGTCTGCGCGTCTGTCGGCTCCTGATCC
AGGCGATCCACAATGATGGTGTCACTGCGTCTTCAACAACCTCCTCTACTACCAAACCAATTACCTTCTCTGCTTTGGCA
TCAGTCTTGCGCTGGCCGGGTACATTCGTCTGCTGCACACCCTCCTGAGCGCACTGGTAGTGGTGGTGGCCCTCGGGGTG
CTGGTGTGGGCTGCTGAAACCCGTGCAGCTGTGCGCCGCTGCCGTAGCCAGCCACCCTGCTGCCTGCCTGGCTGCAGTAC
TTGCCATTAGCCTCTTCATTCTCTGGGCTGTGGGTGGCGCCTTCACCTTCCTGCTCTGCATCACAGCGCCTGTGCTTTTG
ATCCTGCTGCATGCTTCACTGCGTCTGAGAAACCTTAAAAACAAGATTGAGAACAAGATCGAGAGCATCGGTCTAAAGCG
GACACCAATGGGATTGCTTCTAGAGGCTCTGGGACAGGAGCAGGAAGCTGGATCC
ORF - retro_mmus_910 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 92.74 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MSEVRLPPLRALDDFVLGSARLAAPDPGDPQRWCHRVINNLLYYQTNYLLCFGISLALAGYIRPLHTLLS |
| M.EVRLP.L..LDDFVLGSARL.APDPGDPQ.WCH.V.NNLLYYQTNYLLCFGISLALAGYIR.LHTLLS | |
| Retrocopy | MLEVRLPLLSTLDDFVLGSARLSAPDPGDPQ*WCHCVFNNLLYYQTNYLLCFGISLALAGYIRLLHTLLS |
| Parental | ALVVVVALGVLVWAAETRAAVRRCR-RSHPAACLAAVLAISLFILWAVGGAFTFLLSITAPVFLILLHAS |
| ALVVVVALGVLVWAAETRAAVRRCR..SHPAACLAAVLAISLFILWAVGGAFTFLL.ITAPV.LILLHAS | |
| Retrocopy | ALVVVVALGVLVWAAETRAAVRRCR>ASHPAACLAAVLAISLFILWAVGGAFTFLLCITAPVLLILLHAS |
| Parental | LRLRNLKNKIENKIESIGLKRTPMGLLLEALGQEQEAGS |
| LRLRNLKNKIENKIESIGLKRTPMGLLLEALGQEQEAGS | |
| Retrocopy | LRLRNLKNKIENKIESIGLKRTPMGLLLEALGQEQEAGS |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)
Expression validation based on RNA-Seq data:
| Library | Retrocopy expression | Parental gene expression |
|---|---|---|
| SRP007412_brain | 0 .00 RPM | 36 .40 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 28 .61 RPM |
| SRP007412_heart | 0 .00 RPM | 3 .80 RPM |
| SRP007412_kidney | 0 .00 RPM | 5 .31 RPM |
| SRP007412_liver | 0 .00 RPM | 2 .10 RPM |
| SRP007412_testis | 0 .00 RPM | 0 .64 RPM |
RNA Polymerase II activity near the 5' end of retro_mmus_910 was not detected
No EST(s) were mapped for retro_mmus_910 retrocopy.
No TSS is located nearby retro_mmus_910 retrocopy 5' end.
retro_mmus_910 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmus_910 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Mus musculus | ENSMUSG00000031149 | 1 retrocopy |
retro_mmus_910 ,
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